DmeINT0005157 @ dm6
Intron Retention
Gene
FBgn0034417 | CG15117
Description
This gene is referred to in FlyBase by the symbol DmelCG15117 (FBgn0034417). It is a protein_coding_gene from Dmel. It has 7 annotated transcripts and 7 polypeptides (5 unique). Gene sequence location is 2R:19122231..19129300. Its molecular function is described by: carbohydrate binding; beta-glucuronidase activity. It is involved in the biological process described with: glucuronoside catabolic process; multicellular organism reproduction. 9 alleles are reported. The phenotypes of these alleles manifest in: trichogen cell; mesothoracic tergum. The phenotypic classes of alleles include: partially lethal - majority die; some die during pupal stage; fertile; visible; viable. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderately high expression to a trough of very low expression. Peak expression observed within 12-24 hour embryonic stages, in adult male stages.
Coordinates
chr2R:19123295-19124036:-
Coord C1 exon
chr2R:19123499-19124036
Coord A exon
chr2R:19123439-19123498
Coord C2 exon
chr2R:19123295-19123438
Length
60 bp
Sequences
Splice sites
5' ss Seq
AGAGTTGAG
5' ss Score
-19.62
3' ss Seq
CTCTTGGCTTCGATTTTCAGAAA
3' ss Score
8.04
Exon sequences
Seq C1 exon
TTGGCGAAGTGTTCTATAGCGTAAGCGTGAATGGCAGCGCTGCCAACGAGGCAGATAATGTCTTGCAAATCCAGGCCAATTTGTACGATAAGGATGGCATATTGGTGGCGAATGCCACGTCGGACCAAAAACTTGGCGGCAAGCTGCAAGTGAACCCGGTGAAGCCCTGGTGGCCCTACCTAATGCATTCCGAACCGGGTTATCTGTACCAGCTGGAGATCAAATTGCTGGCGACCAACGATGAGCTCCTGGATGTCTACCGACTGAAAGTGGGAATACGCACACTAAGTTGGAACAGCCAGCAGTTCCTGATCAACGGCAAGCCCGTTTACTTCCGTGGTTTTGGACGACACGAAGATTCGGATATCAGGGGTAAGGGTCTGGACAATGCACTGATGGTGCGCGATTTCAATCTGCTCAAGTGGATTGGAGCGAATGCGTATCGCACGTCGCATTATCCCTACTCCGAGGAGTCCATGCAGTTTGCGGATGAGCACGGCATCATGATCATCGACGAATGTCCCAGTGTGGATACAGA
Seq A exon
GTTGAGTTATTCCGACACCTCGAAGGGATTCTTACTAATGCTCTTGGCTTCGATTTTCAG
Seq C2 exon
AAACTTTAGCCAGGAGCTGCTGGGCAAGCACAAATCGTCGCTGGAGCAGCTCATCCATCGGGATCGGAATCATCCAAGTGTGGTGATGTGGTCCATTGCCAATGAACCCCGGACTGGTAGCGTGAGTGCGGATTCGTACTTTGA
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0034417:FBtr0086593:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0070316=Glyco_hydro_2=PD(83.8=51.7),PF0283612=Glyco_hydro_2_C=PU(28.1=46.7)
A:
NA
C2:
PF0283612=Glyco_hydro_2_C=FE(16.1=100)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0085778
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0085777, FBpp0099475, FBpp0309399, FBpp0309400, FBpp0309401
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACGGCATCATGATCATCGACG
R:
GCAATGGACCACATCACCACA
Band lengths:
142-202
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Neural diversity
- Neurogenesis
- Neuronal activity
- Splicing factor regulation (brain)
- Splicing factor regulation (SL2)